Cavity programs: Difference between revisions
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Nearly all proteins have irregular surfaces with shallow pockets, mostly with no known functions. Some proteins have deep pockets, for example the catalytic anionic gorge in acetylcholinesterase (e. g. [[1vot]]). Such a pocket can also be termed a tunnel accessing the catalytic site<ref name="damborsky3" /><ref name="kingsley" />. | Nearly all proteins have irregular surfaces with shallow pockets, mostly with no known functions. Some proteins have deep pockets, for example the catalytic anionic gorge in acetylcholinesterase (e. g. [[1vot]]). Such a pocket can also be termed a tunnel accessing the catalytic site<ref name="damborsky3" /><ref name="kingsley" />. | ||
Programs are listed alphabetically. | Programs are listed alphabetically. The '''example below''' is the membrane-proximal cavity of [[SARS-CoV-2 spike protein priming by furin|SARS-CoV-2 spike protein]] ([[6zgi]]). The membrane-proximal cavity is a [[SARS-CoV-2 spike protein fusion transformation|potential target for drugs to prevent membrane fusion]], and thus prevent infection. | ||
==CASTp== | ==CASTp== | ||
<table align="right" width="450" cellpadding="5" hspace="8" style="border: 1px solid black; border-collapse:collapse;padding-left:8px;"><tr><td> | <table align="right" width="450" cellpadding="5" hspace="8" style="border: 1px solid black; border-collapse:collapse;padding-left:8px;"><tr><td> | ||
<span style="font-size:120%; font-weight:bold;">CASTp:</span><br>Membrane-proximal cavity in the [[SARS-CoV-2 spike protein priming by furin|SARS-CoV-2 spike protein]] ([[6zgi]]) shown as a translucent envelope in blue (CASTp default probe radius, 1.4 Å) | <span style="font-size:120%; font-weight:bold;">CASTp:</span><br>Membrane-proximal cavity in the [[SARS-CoV-2 spike protein priming by furin|SARS-CoV-2 spike protein]] ([[6zgi]]) shown as a translucent envelope in blue (CASTp default probe radius, 1.4 Å). | ||
</td><td> | </td><td> | ||
[[Image:Castp-6zgi.png|200px]] | [[Image:Castp-6zgi.png|200px]] | ||
